Skip to content

Estimate cortical thickness out from two cortical meshes without node correspondence

License

Notifications You must be signed in to change notification settings

xgrg/cortical_thickness

Folders and files

NameName
Last commit message
Last commit date

Latest commit

 

History

13 Commits
 
 
 
 
 
 
 
 
 
 
 
 
 
 

Repository files navigation

Cortical Thickness

Usage

$ git clone git@github.com:xgrg/cortical_thickness.git
$ cd cortical_thickness
$ ./thickness.py --int /path/to/innersurf.gii --ext /path/to/outersurf.gii --thickness /path/to/thicknessmap.gii
$ ./compare_maps.py --m1 /path/to/firstmesh.gii --m2 /path/to/secondmesh.gii --t1 /path/to/firstmap.gii --t2 /path/to/secondmap.gii --diff /path/to/diffmap.gii --dist /path/to/distmap.gii

Example

To run it on the provided dataset :

$ ./thickness.py --int data/lh.r.aims.white.gii --ext data/lh.r.aims.pial.gii --thickness data/lh.r.aims.thickness.gii --mid data/lh.r.aims.mid.gii
$ ./thickness.py --int data/subject1_scan01_Lwhite.gii --ext data/subject1_scan01_Lhemi.gii --thickness data/subject1_scan01_Lthickness.gii --mid data/subject1_scan01_Lmid.gii
$ ./compare_maps.py --m1 data/subject1_scan01_Lwhite.gii --m2 data/lh.r.aims.white.gii --t1 data/subject1_scan01_Lthickness.gii --t2 data/lh.r.aims.thickness.gii --diff data/diff.gii --dist data/dist.gii

Requirements

  • nibabel, gdist, numpy, pickle (optional)

Version

still in development

About

Estimate cortical thickness out from two cortical meshes without node correspondence

Topics

Resources

License

Stars

Watchers

Forks

Releases

No releases published

Packages

No packages published

Languages